Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 50
Found at i:8537359 original size:21 final size:21
Alignment explanation
Indices: 8537335--8537379 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8537325 GTCAAAGAAA
*
8537335 GTCAACGGTCAACGATCAATG
1 GTCAACGGTCAACGATCAAAG
*
8537356 GTCAACGGTCAACGGTCAAAG
1 GTCAACGGTCAACGATCAAAG
8537377 GTC
1 GTC
8537380 GGGTCGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (21 bp):
GTCAACGGTCAACGATCAAAG
Found at i:8537390 original size:5 final size:5
Alignment explanation
Indices: 8537376--8537435 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
8537366 AACGGTCAAA
* * * * *
8537376 GGTCG GGTCG AGTCG GGTCG GGTCAAC GGTTG GGTCG GGTCG GTTCG GTTC-
1 GGTCG GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG
8537427 GGTCG GGTC
1 GGTCG GGTC
8537436 AGACCGGTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
4 3 0.07
5 38 0.86
7 3 0.07
ACGTcount: A:0.05, C:0.20, G:0.50, T:0.25
Consensus pattern (5 bp):
GGTCG
Found at i:8537410 original size:27 final size:27
Alignment explanation
Indices: 8537369--8537423 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
8537359 AACGGTCAAC
8537369 GGTCAAAGGTCGGGTCGAGTCGGGTCG
1 GGTCAAAGGTCGGGTCGAGTCGGGTCG
* * * *
8537396 GGTCAACGGTTGGGTCGGGTCGGTTCG
1 GGTCAAAGGTCGGGTCGAGTCGGGTCG
8537423 G
1 G
8537424 TTCGGTCGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.11, C:0.18, G:0.49, T:0.22
Consensus pattern (27 bp):
GGTCAAAGGTCGGGTCGAGTCGGGTCG
Found at i:8537443 original size:19 final size:18
Alignment explanation
Indices: 8537391--8537439 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
8537381 GGTCGAGTCG
*
8537391 GGTCGGGTCA-ACGGTTG
1 GGTCGGGTCAGACGGTTC
* *
8537408 GGTCGGGTCGGTTCGGTTC
1 GGTCGGGTCAG-ACGGTTC
8537427 GGTCGGGTCAGAC
1 GGTCGGGTCAGAC
8537440 CGGTAAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 9 0.36
18 1 0.04
19 15 0.60
ACGTcount: A:0.08, C:0.20, G:0.47, T:0.24
Consensus pattern (18 bp):
GGTCGGGTCAGACGGTTC
Found at i:8544395 original size:22 final size:22
Alignment explanation
Indices: 8544368--8544412 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8544358 AACGGTCAAC
* *
8544368 GGTCAACGGTCGGGTCGGTTCG
1 GGTCAACGATCGGGTCGGGTCG
8544390 GGTCAACGATCGGGTCGGGTCG
1 GGTCAACGATCGGGTCGGGTCG
8544412 G
1 G
8544413 TTCGGTTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.20
Consensus pattern (22 bp):
GGTCAACGATCGGGTCGGGTCG
Found at i:8547714 original size:7 final size:7
Alignment explanation
Indices: 8547702--8547734 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
8547692 TCAAAATGAG
8547702 ATGGAGA
1 ATGGAGA
8547709 ATGGAGA
1 ATGGAGA
8547716 ATGGAGA
1 ATGGAGA
8547723 ATGGAGA
1 ATGGAGA
8547730 ATGGA
1 ATGGA
8547735 AGCCCATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15
Consensus pattern (7 bp):
ATGGAGA
Found at i:8556466 original size:3 final size:3
Alignment explanation
Indices: 8556458--8556500 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
8556448 CTAATTATAT
*
8556458 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA -TA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8556501 GTTACAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8557321 original size:34 final size:32
Alignment explanation
Indices: 8557268--8557337 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
8557258 CCTTACAAAC
* * *
8557268 TCCCTAGTTTTTCCGGGCTAAACTGGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
*
8557300 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
8557334 TCCC
1 TCCC
8557338 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:8557709 original size:20 final size:20
Alignment explanation
Indices: 8557684--8557744 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
8557674 CCGTTAGACA
*
8557684 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
8557704 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
8557724 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
8557744 G
1 G
8557745 ATAATCTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.13, C:0.30, G:0.38, T:0.20
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:8558108 original size:20 final size:20
Alignment explanation
Indices: 8558083--8558144 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
8558073 GAAATTACTC
8558083 CCCCTTACTTTAACACTTCT
1 CCCCTTACTTTAACACTTCT
*
8558103 -CCC---CTTTAACAC-CCT
1 CCCCTTACTTTAACACTTCT
8558118 CCCCCTTACTTTAACACTTCT
1 -CCCCTTACTTTAACACTTCT
8558139 CCCCTT
1 CCCCTT
8558145 TAACACCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 2 0.06
16 9 0.26
17 3 0.09
19 3 0.09
20 15 0.44
21 2 0.06
ACGTcount: A:0.18, C:0.47, G:0.00, T:0.35
Consensus pattern (20 bp):
CCCCTTACTTTAACACTTCT
Found at i:8558111 original size:16 final size:16
Alignment explanation
Indices: 8558090--8558150 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
8558080 CTCCCCCTTA
8558090 CTTTAACACTTCTCCC
1 CTTTAACACTTCTCCC
* *
8558106 CTTTAACACCCTCCCCC
1 CTTTAACA-CTTCTCCC
8558123 TTACTTTAACACTTCTCCC
1 ---CTTTAACACTTCTCCC
8558142 CTTTAACAC
1 CTTTAACAC
8558151 CTTAACACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 17 0.46
17 6 0.16
19 6 0.16
20 8 0.22
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.34
Consensus pattern (16 bp):
CTTTAACACTTCTCCC
Found at i:8558127 original size:36 final size:36
Alignment explanation
Indices: 8558080--8558151 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
8558070 TTTGAAATTA
8558080 CTCCCCCTTACTTTAACACTTCTCCCCTTTAACACC
1 CTCCCCCTTACTTTAACACTTCTCCCCTTTAACACC
8558116 CTCCCCCTTACTTTAACACTTCTCCCCTTTAACACC
1 CTCCCCCTTACTTTAACACTTCTCCCCTTTAACACC
8558152 TTAACACTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.47, G:0.00, T:0.33
Consensus pattern (36 bp):
CTCCCCCTTACTTTAACACTTCTCCCCTTTAACACC
Found at i:8559537 original size:3 final size:3
Alignment explanation
Indices: 8559529--8559572 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
8559519 TACGCCCTCA
* * *
8559529 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTG TTT TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8559573 CCTTTCTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:8561005 original size:20 final size:20
Alignment explanation
Indices: 8560980--8561040 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
8560970 CCGTTAGACA
*
8560980 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
8561000 GGGGGAATCTGT-TCCCCTGG
1 GGGGGAATCTGTACCCCCT-G
8561020 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
8561040 G
1 G
8561041 ATAATCTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.13, C:0.28, G:0.39, T:0.20
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:8562114 original size:33 final size:33
Alignment explanation
Indices: 8562081--8562145 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
8562071 ATATTCTATA
8562081 AAGT-AACTAATAATAAAAAATTAAATAAATAT
1 AAGTGAACTAATAATAAAAAATTAAATAAATAT
* * * * *
8562113 AATTGAACTAATATTAACAAATTATATATATAT
1 AAGTGAACTAATAATAAAAAATTAAATAAATAT
8562146 GCGTACTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (33 bp):
AAGTGAACTAATAATAAAAAATTAAATAAATAT
Found at i:8562813 original size:2 final size:2
Alignment explanation
Indices: 8562801--8562832 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8562791 GCCGCTTAAC
8562801 CT CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8562833 GCACGAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:8563797 original size:3 final size:3
Alignment explanation
Indices: 8563779--8563856 Score: 88
Period size: 3 Copynumber: 26.3 Consensus size: 3
8563769 TATGTAACAT
* * *
8563779 TAA TAA TAT TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* *
8563825 TTA TAA T-A TAA TAA TTA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8563857 TTGAATATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
2 4 0.06
3 59 0.91
4 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:8563866 original size:36 final size:39
Alignment explanation
Indices: 8563793--8563869 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
8563783 AATATTAGTA
*
8563793 ATAATAATAATAATAATAATAATAATAATGTATTATAAT
1 ATAATAATAATAATAATAATAATAATAATGTAATATAAT
* *
8563832 ATAATAATTATAATAATAAT-ATAAT-TTG-AATATAAT
1 ATAATAATAATAATAATAATAATAATAATGTAATATAAT
8563868 AT
1 AT
8563870 TTATAACCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 9 0.26
37 2 0.06
38 5 0.14
39 19 0.54
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (39 bp):
ATAATAATAATAATAATAATAATAATAATGTAATATAAT
Found at i:8564221 original size:55 final size:55
Alignment explanation
Indices: 8564048--8564685 Score: 875
Period size: 55 Copynumber: 11.7 Consensus size: 55
8564038 CAGCGGGTTC
* * * * * * * *
8564048 GCTCCCTCTTGCTTCAGGGAGTGTAAAACTCAAACAATCTTCATA-AAACGGGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCA-ACAATCGTGTAT
* * * **
8564103 GTTCCCTATTCCTTCAGACAGTATAGGACTCG----ATCTTCAACAAAGGTGT-T
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
* * *
8564153 CGCTCCCTATTCCTTCAGAGAGTATAGGACTTGAACAACCTTCAACAAAT-GTGTAT
1 -GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-AATCGTGTAT
* * *
8564209 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
* * *
8564260 GCTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
* *
8564315 GCTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
* *
8564370 GCTCCCTATTCATTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
* * *
8564425 GATCCTTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
8564480 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
* * *
8564535 GCTCCTTATTCCTTCAGAGTGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
*
8564590 TCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
8564645 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTT
8564686 GATTCTTCAA
Statistics
Matches: 526, Mismatches: 44, Indels: 26
0.88 0.07 0.04
Matches are distributed among these distances:
50 4 0.01
51 85 0.16
55 434 0.83
56 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (55 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTAT
Found at i:8565748 original size:13 final size:13
Alignment explanation
Indices: 8565732--8565791 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 13
8565722 TTTTGCTTCA
8565732 TTTTTTTCTC-TT
1 TTTTTTTCTCTTT
8565744 TTTTTTTCTCTTT
1 TTTTTTTCTCTTT
*
8565757 TTTTATTCACTCTTT
1 TTTT-TT-TCTCTTT
8565772 TCATTTTTTC-CTTT
1 T--TTTTTTCTCTTT
8565786 TTTTTT
1 TTTTTT
8565792 CATTTTTTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
12 15 0.37
13 6 0.15
14 7 0.17
15 8 0.20
16 2 0.05
17 3 0.07
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:8565787 original size:9 final size:9
Alignment explanation
Indices: 8565769--8565825 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
8565759 TTATTCACTC
*
8565769 TTTTCATTT
1 TTTTCTTTT
*
8565778 TTTCCTTTTT
1 TTTTC-TTTT
*
8565788 TTTTCATTT
1 TTTTCTTTT
*
8565797 TTTCCTTTTT
1 TTTTC-TTTT
8565807 TTTTCTTTT
1 TTTTCTTTT
8565816 TTTTCTTTT
1 TTTTCTTTT
8565825 T
1 T
8565826 CCTCTTCAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 25 0.64
10 14 0.36
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:8565791 original size:19 final size:19
Alignment explanation
Indices: 8565769--8565825 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
8565759 TTATTCACTC
8565769 TTTTCATTTTTTCCTTTTT
1 TTTTCATTTTTTCCTTTTT
8565788 TTTTCATTTTTTCCTTTTT
1 TTTTCATTTTTTCCTTTTT
* *
8565807 TTTTCTTTTTTTTCTTTTT
1 TTTTCATTTTTTCCTTTTT
8565826 CCTCTTCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCATTTTTTCCTTTTT
Found at i:8565808 original size:28 final size:29
Alignment explanation
Indices: 8565743--8565819 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
8565733 TTTTTTCTCT
8565743 TTTTTTTTCTCTTTTTTTATTCACTCTTTTC
1 TTTTTTTTC-CTTTTTTT-TTCACTCTTTTC
* *
8565774 -ATTTTTTCCTTTTTTTTTCA-TTTTTTCC
1 TTTTTTTTCCTTTTTTTTTCACTCTTTT-C
*
8565802 TTTTTTTTTCTTTTTTTT
1 TTTTTTTTCCTTTTTTTT
8565820 CTTTTTCCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 23 0.57
30 7 0.17
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTTTTCCTTTTTTTTTCACTCTTTTC
Found at i:8570134 original size:96 final size:96
Alignment explanation
Indices: 8569965--8570256 Score: 485
Period size: 96 Copynumber: 3.0 Consensus size: 96
8569955 CTCCATTCTT
* * * *
8569965 ACCTGCAATGTGAAGTGGTCTTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGACTTTAT
1 ACCTCCAATGAGAAGTGGTCTTCATGTCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATAT
*
8570030 CTATCTCTTGATTCAACATCTTGGCCTTTGC
66 CTATCTCTTGAGTCAACATCTTGGCCTTTGC
8570061 ACCTCCAATGAGAAGTGGTCTTCATGTCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATAT
1 ACCTCCAATGAGAAGTGGTCTTCATGTCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATAT
8570126 CTATCTCTTGAGTCAACATCTTGGCCTTTGC
66 CTATCTCTTGAGTCAACATCTTGGCCTTTGC
* * * *
8570157 ATCTCCAATGCGAAGTGGTCTTCATGTCTTTATGAAGGGTCTTCTCGTCCTTGGTATGACTGTAT
1 ACCTCCAATGAGAAGTGGTCTTCATGTCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATAT
* *
8570222 CAATCTCTTGAGTCAACATCTTGGCCTCTGC
66 CTATCTCTTGAGTCAACATCTTGGCCTTTGC
8570253 ACCT
1 ACCT
8570257 TTAAAAGAAT
Statistics
Matches: 184, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 184 1.00
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (96 bp):
ACCTCCAATGAGAAGTGGTCTTCATGTCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTATAT
CTATCTCTTGAGTCAACATCTTGGCCTTTGC
Found at i:8572258 original size:33 final size:33
Alignment explanation
Indices: 8572225--8572289 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
8572215 ATATTCTATA
8572225 AAGT-AACTAATAATAAAAAATTAAATAAATAT
1 AAGTGAACTAATAATAAAAAATTAAATAAATAT
* * * * *
8572257 AATTGAACTAATATTAACAAATTATATATATAT
1 AAGTGAACTAATAATAAAAAATTAAATAAATAT
8572290 GCGTACTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (33 bp):
AAGTGAACTAATAATAAAAAATTAAATAAATAT
Found at i:8572843 original size:9 final size:9
Alignment explanation
Indices: 8572829--8572870 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
8572819 AAACGAATAT
8572829 AATAAAGAA
1 AATAAAGAA
8572838 AATAAA-AA
1 AATAAAGAA
* *
8572846 AACAAATAA
1 AATAAAGAA
8572855 AATAAAGCAA
1 AATAAAG-AA
8572865 AATAAA
1 AATAAA
8572871 AGGAATAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
10 8 0.29
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (9 bp):
AATAAAGAA
Found at i:8572847 original size:26 final size:27
Alignment explanation
Indices: 8572818--8572871 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
8572808 GAAAAAAGTG
* *
8572818 AAAACGAATATAATAAAG-AAAATAAA
1 AAAACAAATAAAATAAAGCAAAATAAA
8572844 AAAACAAATAAAATAAAGCAAAATAAA
1 AAAACAAATAAAATAAAGCAAAATAAA
8572871 A
1 A
8572872 GGAATAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.13
Consensus pattern (27 bp):
AAAACAAATAAAATAAAGCAAAATAAA
Found at i:8573374 original size:5 final size:5
Alignment explanation
Indices: 8573366--8573397 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
8573356 ACATTAAAAC
*
8573366 AAATA AAATA AAATA AAATA AAATA AGATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
8573398 CAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:8574586 original size:2 final size:2
Alignment explanation
Indices: 8574558--8574613 Score: 73
Period size: 2 Copynumber: 29.0 Consensus size: 2
8574548 AACAAACAAT
*
8574558 TA TA TG TA T- TA TA -A TA TGA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
8574598 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
8574614 GTGTAATATG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
1 3 0.06
2 43 0.90
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8575404 original size:94 final size:94
Alignment explanation
Indices: 8575230--8575964 Score: 912
Period size: 94 Copynumber: 7.4 Consensus size: 94
8575220 GTGTTGTTTC
* * * *
8575230 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGTTTACTGACAACCAGCAGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATTGTTTATTGACAACCAGCGGT
*
8575295 CCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
62 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
8575328 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCT
*
8575393 TCGTCGTGAAGTTGAACTTGAGTTGTCTG
66 TCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
8575422 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAGATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTG--A---------A-ATTGGGAAATTGTTTATTGACAA
*
8575487 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
54 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
8575528 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTGACAA
8575593 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
54 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
8575634 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTCGGAAATTGTTTATTGACAACCAGCGGTCCCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCT
8575699 TCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 TCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
8575728 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGTTTATTGATAACCAACGGT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATTGTTTATTGACAACCAGCGGT
*
8575793 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGG
62 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
8575826 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT--G-----TTTATTGACAAC
* * *
8575891 CAGCAGTTCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTG
55 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
8575931 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
8575965 ACTCTGGGTA
Statistics
Matches: 573, Mismatches: 29, Indels: 63
0.86 0.04 0.09
Matches are distributed among these distances:
94 180 0.31
95 1 0.00
96 2 0.00
98 134 0.23
99 2 0.00
100 3 0.01
101 1 0.00
104 1 0.00
105 81 0.14
106 156 0.27
107 1 0.00
108 1 0.00
111 1 0.00
112 2 0.00
113 2 0.00
116 2 0.00
117 1 0.00
118 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (94 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCT
TCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:8575503 original size:200 final size:199
Alignment explanation
Indices: 8575270--8575964 Score: 973
Period size: 200 Copynumber: 3.5 Consensus size: 199
8575260 ATTGGCTCTA
*
8575270 AAATTGTTTACTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
1 AAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
8575335 ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
* *
8575400 GAAGTTGAACTTGAGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAGA
131 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGA-A
8575465 TTGGG
195 TTGGG
* *
8575470 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
1 AAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
8575535 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGG
66 ATATCCTTCG-T-T---G-TG-AA---G-T-TGAAATTGGGAAATTGTTTATTGACAACCAGCGG
*
8575600 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAA
119 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
8575665 -T---T-C------GG
184 TTGGCTCCGAATTGGG
* *
8575670 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
* * *
8575735 ATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGTTTATTGATAACCAACGGTCCCTTCG
66 ATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATTGTTTATTGACAACCAGCGGTCCCTTCG
* *
8575800 TCGTGAAGTTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
127 TCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCC
*
8575865 GAAATTGAG
192 G-AATTGGG
* * * * *
8575874 AAA-TATTTGTTGACAACCAGCAGTTCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
8575938 ATATCCTTCGTTGTGAAGTTGAAATTG
66 ATATCCTTCGTTGTGAAGTTGAAATTG
8575965 ACTCTGGGTA
Statistics
Matches: 446, Mismatches: 21, Indels: 53
0.86 0.04 0.10
Matches are distributed among these distances:
188 8 0.02
189 1 0.00
190 1 0.00
192 86 0.19
193 3 0.01
194 2 0.00
195 1 0.00
196 1 0.00
198 1 0.00
199 1 0.00
200 147 0.33
201 1 0.00
202 1 0.00
203 82 0.18
204 4 0.01
205 1 0.00
206 2 0.00
207 3 0.01
208 1 0.00
210 1 0.00
211 2 0.00
212 96 0.22
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (199 bp):
AAATTGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAT
TGGG
Found at i:8575543 original size:106 final size:105
Alignment explanation
Indices: 8575357--8575964 Score: 894
Period size: 106 Copynumber: 5.9 Consensus size: 105
8575347 GTGAAGTTGA
*
8575357 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGAGTTGTCTG
1 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
8575422 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCG
* *
8575462 AGATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
1 A-ATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
8575527 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
65 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCG
8575568 AAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 -AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
8575633 GGAGTCCAATATCCTTCATTGTGAAGTTGAAA-T---T-C-
65 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCG
8575668 -----GGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
8575728 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCT-C-
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCG
* * *
8575766 ---T--GAAATTGTTTATTGATAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCGG
1 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
8575826 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
66 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCG
* * * * * *
8575866 AAATTGAGAAA-TATTTGTTGACAACCAGCAGTTCCTTCGCCGTGAAGTTGAACTTGCGTTGTCT
1 -AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
8575930 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
65 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
8575965 ACTCTGGGTA
Statistics
Matches: 464, Mismatches: 24, Indels: 30
0.90 0.05 0.06
Matches are distributed among these distances:
94 89 0.19
95 1 0.00
98 94 0.20
102 1 0.00
104 1 0.00
105 82 0.18
106 195 0.42
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCG
Found at i:8576820 original size:48 final size:48
Alignment explanation
Indices: 8576759--8576878 Score: 206
Period size: 48 Copynumber: 2.5 Consensus size: 48
8576749 TCTATTTTTT
*
8576759 CTTTTTTTTTTCAATTTATGGCGCCCTTTCAGGTTTTCACCCTAAACG
1 CTTTTTTTTTTCAATTTAGGGCGCCCTTTCAGGTTTTCACCCTAAACG
8576807 CTTTTTTTTTTCAATTTAGGGCGCCCTTTCAGGTTTTCACCCTAAACG
1 CTTTTTTTTTTCAATTTAGGGCGCCCTTTCAGGTTTTCACCCTAAACG
* *
8576855 -TTTTTTTTTTCAACTTAGGACGCC
1 CTTTTTTTTTTCAATTTAGGGCGCC
8576879 TACTCGGGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 22 0.32
48 47 0.68
ACGTcount: A:0.17, C:0.24, G:0.13, T:0.46
Consensus pattern (48 bp):
CTTTTTTTTTTCAATTTAGGGCGCCCTTTCAGGTTTTCACCCTAAACG
Found at i:8587140 original size:9 final size:9
Alignment explanation
Indices: 8587126--8587167 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
8587116 AAACGAATAT
8587126 AATAAAGAA
1 AATAAAGAA
8587135 AATAAA-AA
1 AATAAAGAA
* *
8587143 AACAAATAA
1 AATAAAGAA
8587152 AATAAAGCAA
1 AATAAAG-AA
8587162 AATAAA
1 AATAAA
8587168 AGGAATAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
10 8 0.29
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.12
Consensus pattern (9 bp):
AATAAAGAA
Found at i:8587144 original size:26 final size:27
Alignment explanation
Indices: 8587115--8587168 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
8587105 GAAAAAAGTG
* *
8587115 AAAACGAATATAATAAAG-AAAATAAA
1 AAAACAAATAAAATAAAGCAAAATAAA
8587141 AAAACAAATAAAATAAAGCAAAATAAA
1 AAAACAAATAAAATAAAGCAAAATAAA
8587168 A
1 A
8587169 GGAATAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.13
Consensus pattern (27 bp):
AAAACAAATAAAATAAAGCAAAATAAA
Found at i:8587683 original size:5 final size:5
Alignment explanation
Indices: 8587675--8587706 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
8587665 ACATTAAAAC
*
8587675 AAATA AAATA AAATA AAATA AAATA AGATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
8587707 CAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:8590392 original size:3 final size:3
Alignment explanation
Indices: 8590377--8590451 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
8590367 TATGTAACAT
* * *
8590377 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TGTA TTA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * *
8590422 TAG TTA TTA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8590452 TTTAATATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 4 0.07
3 55 0.90
4 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:8592038 original size:298 final size:303
Alignment explanation
Indices: 8591534--8592133 Score: 1088
Period size: 298 Copynumber: 2.0 Consensus size: 303
8591524 TTAATCTCAT
8591534 ATTTTTTGTTTTAATTAATGATAATGTTTTTTATGTATTTTATTTCTTAAGTAATTATAATATCA
1 ATTTTTTGTTTTAATTAATGATAATGTTTTTTATGTATTTTATTTCTTAAGTAATTATAATATCA
8591599 AATTTTAAAAATATATTATGCTAATTAATGTCTTTGGTAAACGTTTTTTTATATTTTAATATTTT
66 AATTTTAAAAATATATTATGCTAATTAATGTCTTTGGTAAACGTTTTTTTATATTTTAATATTTT
* *
8591664 TGTTAATTGATAATAACATTTTTTGTCATATTATTTTATTCATTAATATATTTTTTAAATAATCA
131 TATTAATTGATAATAACATTTTTTGTCATATTATTTTATTCATTAATATATTTATTAAATAATCA
8591729 TAATATCTTATGCTAATTAATTTTATAATTTAATTAAAGAATAAT-A-A-T-TTT-TTTTTTTAA
196 TAATATCTTATGCTAATTAATTTTATAATTTAATTAAAGAATAATAATATTATTTATTTTTTTAA
*
8591789 TATATAACCATTAAAATTTCTTCGCATTTACTTAAATATTTTA
261 TATATAACCATTAAAATTTATTCGCATTTACTTAAATATTTTA
8591832 ATTTTTTGTTTTAATTAATGATAATGTTTTTTATGTATTTTATTTCTTAAGTAATTATAATATCA
1 ATTTTTTGTTTTAATTAATGATAATGTTTTTTATGTATTTTATTTCTTAAGTAATTATAATATCA
*
8591897 ATTTTTAAAAATATATTATGCTAATTAATGTCTTTGGTAAACGTTTTTTTTATATTTTAATATTT
66 AATTTTAAAAATATATTATGCTAATTAATGTCTTTGGTAAACG-TTTTTTTATATTTTAATATTT
8591962 TTATTAATTGATAAT-A-ATGTTTTTGTCATATTATTTTATTCATTAATATATTTATTAAATAAT
130 TTATTAATTGATAATAACAT-TTTTTGTCATATTATTTTATTCATTAATATATTTATTAAATAAT
8592025 CATAATATCTTATGCTAATTAATTTTATAATTTAATTAAAGAATAATAATATTTATTTATTTTTT
194 CATAATATCTTATGCTAATTAATTTTATAATTTAATTAAAGAATAATAATA-TTATTTATTTTTT
8592090 TAATATATAACCATTAAAATTTATTCGCATTTACTTAAATATTT
258 TAATATATAACCATTAAAATTTATTCGCATTTACTTAAATATTT
8592134 ACTTCATATA
Statistics
Matches: 290, Mismatches: 4, Indels: 10
0.95 0.01 0.03
Matches are distributed among these distances:
297 2 0.01
298 198 0.68
299 36 0.12
300 1 0.00
302 1 0.00
303 3 0.01
304 49 0.17
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (303 bp):
ATTTTTTGTTTTAATTAATGATAATGTTTTTTATGTATTTTATTTCTTAAGTAATTATAATATCA
AATTTTAAAAATATATTATGCTAATTAATGTCTTTGGTAAACGTTTTTTTATATTTTAATATTTT
TATTAATTGATAATAACATTTTTTGTCATATTATTTTATTCATTAATATATTTATTAAATAATCA
TAATATCTTATGCTAATTAATTTTATAATTTAATTAAAGAATAATAATATTATTTATTTTTTTAA
TATATAACCATTAAAATTTATTCGCATTTACTTAAATATTTTA
Found at i:8593092 original size:18 final size:18
Alignment explanation
Indices: 8593056--8593094 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8593046 AAGTTTGTCT
*
8593056 TTTTAATTAAAATATAAA
1 TTTTAATTAAAATACAAA
8593074 TTTT-ATTAAAATGACAAA
1 TTTTAATTAAAAT-ACAAA
8593092 TTT
1 TTT
8593095 ATTTTTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTTAATTAAAATACAAA
Found at i:8593614 original size:21 final size:21
Alignment explanation
Indices: 8593587--8593638 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
8593577 ATATATGTAA
8593587 TCCTTTGGAACATATATGGGG
1 TCCTTTGGAACATATATGGGG
* * **
8593608 TCTTTTGAAACATATATTTGG
1 TCCTTTGGAACATATATGGGG
8593629 TCCTTTGGAA
1 TCCTTTGGAA
8593639 TATGTATATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (21 bp):
TCCTTTGGAACATATATGGGG
Found at i:8593678 original size:23 final size:24
Alignment explanation
Indices: 8593647--8593693 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
8593637 AATATGTATA
* *
8593647 TGGTTCTTAAGGAGA-TTTATATG
1 TGGTCCTTAAGGACATTTTATATG
*
8593670 TGGTCCTTATGGACATTTTATATG
1 TGGTCCTTAAGGACATTTTATATG
8593694 GCACTCCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (24 bp):
TGGTCCTTAAGGACATTTTATATG
Found at i:8593732 original size:23 final size:23
Alignment explanation
Indices: 8593706--8593783 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
8593696 ACTCCAGTGT
*
8593706 ATTTCTACGCGGCACTTTGGTGC
1 ATTTCTACGTGGCACTTTGGTGC
*
8593729 ATTTCTATGTGGCACTTTGGTGC
1 ATTTCTACGTGGCACTTTGGTGC
*
8593752 ATTTCTATGTGGCACTTCT-GTGC
1 ATTTCTACGTGGCACTT-TGGTGC
*
8593775 ATTTATACG
1 ATTTCTACG
8593784 AGCTATGGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 49 0.98
24 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (23 bp):
ATTTCTACGTGGCACTTTGGTGC
Found at i:8596130 original size:41 final size:40
Alignment explanation
Indices: 8596080--8596269 Score: 184
Period size: 41 Copynumber: 4.6 Consensus size: 40
8596070 TTGTAAACAC
* *
8596080 AAACGCCACTAAAGCATGAGTCTATAGCGGCGTTTGTATA
1 AAACGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTATA
* * * * *
8596120 TAAATGCCACTAAAATACT-AGTCTTTAGCGGCGTTTGTAAACA
1 -AAACGCCACTAAAGTA-TGAGTCTATAGCAGCGTTTGT--ATA
* ** * *
8596163 CAAACACCACTAAAGTACAAGTGTATAGCAGTGTTTGTATA
1 -AAACGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTATA
*
8596204 AAACCGCCACTAAAGTATGAGTGTATAGCAGCGTTTGTATAA
1 AAA-CGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTAT-A
*
8596246 AAATGCCACTAAAGTATGAGTCTA
1 AAACGCCACTAAAGTATGAGTCTA
8596270 CGTTTGTTGA
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
40 3 0.02
41 84 0.69
42 5 0.04
43 30 0.25
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (40 bp):
AAACGCCACTAAAGTATGAGTCTATAGCAGCGTTTGTATA
Found at i:8596238 original size:84 final size:84
Alignment explanation
Indices: 8596069--8596242 Score: 208
Period size: 84 Copynumber: 2.1 Consensus size: 84
8596059 ACTTGCGCCA
* ** * *
8596069 TTTGTAAACACAAACGCCACTAAAGCATGAGTCTATAGCGGCGTTTGTATATAAATGCCACTAAA
1 TTTGTAAACACAAACACCACTAAAGCACAAGTCTATAGCAGCGTTTGTATATAAACGCCACTAAA
* *
8596134 ATACTAGTCTTTAGCGGCG
66 ATACTAGTCTATAGCAGCG
* * *
8596153 TTTGTAAACACAAACACCACTAAAGTACAAGTGTATAGCAGTGTTTGTATA-AAACCGCCACTAA
1 TTTGTAAACACAAACACCACTAAAGCACAAGTCTATAGCAGCGTTTGTATATAAA-CGCCACTAA
* *
8596217 AGTA-TGAGTGTATAGCAGCG
65 AATACT-AGTCTATAGCAGCG
8596237 TTTGTA
1 TTTGTA
8596243 TAAAAATGCC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
83 4 0.05
84 72 0.95
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (84 bp):
TTTGTAAACACAAACACCACTAAAGCACAAGTCTATAGCAGCGTTTGTATATAAACGCCACTAAA
ATACTAGTCTATAGCAGCG
Found at i:8597724 original size:3 final size:3
Alignment explanation
Indices: 8597716--8597770 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
8597706 ATCACTAAAC
*
8597716 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8597764 TAT TAT T
1 TAT TAT T
8597771 TTAATTTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8598043 original size:15 final size:16
Alignment explanation
Indices: 8598015--8598047 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8598005 GTGAACATTA
*
8598015 TAAAAATATTAAATAT
1 TAAAAATATAAAATAT
8598031 TAAAAAT-TAAAATAT
1 TAAAAATATAAAATAT
8598046 TA
1 TA
8598048 TTTGCGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAAATATAAAATAT
Found at i:8598438 original size:3 final size:3
Alignment explanation
Indices: 8598427--8598481 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
8598417 TTTTTTTCCG
**
8598427 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8598473 TTA ATA TTA
1 TTA TTA TTA
8598482 CATTTTACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8599006 original size:13 final size:13
Alignment explanation
Indices: 8598988--8599030 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
8598978 GGGGGGGTTC
8598988 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
* *
8599001 AAAAAAGAAAGAG
1 AAAAAAAAAAAAG
* *
8599014 AAAACATAAAAAG
1 AAAAAAAAAAAAG
8599027 AAAA
1 AAAA
8599031 CAGAAGATAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:8599031 original size:13 final size:13
Alignment explanation
Indices: 8598995--8599035 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
8598985 TTCAAAAAAA
*
8598995 AAAAAGAAAAAAG
1 AAAAAGAAAACAG
* *
8599008 AAAGAGAAAACAT
1 AAAAAGAAAACAG
8599021 AAAAAGAAAACAG
1 AAAAAGAAAACAG
8599034 AA
1 AA
8599036 GATAGGAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAACAG
Found at i:8601044 original size:22 final size:22
Alignment explanation
Indices: 8601019--8601062 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8601009 TCAAACGATG
*
8601019 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
8601041 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
8601063 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:8602612 original size:31 final size:32
Alignment explanation
Indices: 8602576--8602637 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
8602566 ATTTTACATG
8602576 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
8602607 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
8602638 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:8603654 original size:22 final size:23
Alignment explanation
Indices: 8603611--8603655 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
8603601 AGTGCACCAT
*
8603611 TTCCATCTAAGAAGCTCCAGACA
1 TTCCATCTAAGAAGCTCAAGACA
8603634 TTCCA-CTAAGAA-CTGCAAGACA
1 TTCCATCTAAGAAGCT-CAAGACA
8603656 CTAAAGCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 13 0.65
23 5 0.25
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.20
Consensus pattern (23 bp):
TTCCATCTAAGAAGCTCAAGACA
Found at i:8604683 original size:25 final size:25
Alignment explanation
Indices: 8604654--8604721 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
8604644 GACGCAGAGT
8604654 GCAAAGATCAAACCAAAGAAAA-AAAA
1 GCAAAGATCAAA-CAAA-AAAATAAAA
* *
8604680 -CAAAGAGCAAAGAAAAAAATAAAA
1 GCAAAGATCAAACAAAAAAATAAAA
* *
8604704 GCAAAAATCAAAGAAAAA
1 GCAAAGATCAAACAAAAA
8604722 GCAAAGAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.11
24 7 0.19
25 25 0.69
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.04
Consensus pattern (25 bp):
GCAAAGATCAAACAAAAAAATAAAA
Found at i:8604706 original size:18 final size:18
Alignment explanation
Indices: 8604667--8604734 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
8604657 AAGATCAAAC
*
8604667 CAAAGAAAAAAAACAAAGAG
1 CAAAGAACAAAAA-AAA-AG
8604687 CAAAGAA-AAAAATAAAAG
1 CAAAGAACAAAAA-AAAAG
*
8604705 CAAA-AATCAAAGAAAAAG
1 CAAAGAA-CAAAAAAAAAG
8604723 CAAAGAACAAAA
1 CAAAGAACAAAA
8604735 GAGGACAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.05
18 19 0.45
19 14 0.33
20 7 0.17
ACGTcount: A:0.75, C:0.10, G:0.12, T:0.03
Consensus pattern (18 bp):
CAAAGAACAAAAAAAAAG
Found at i:8606344 original size:36 final size:35
Alignment explanation
Indices: 8606289--8606426 Score: 152
Period size: 36 Copynumber: 3.9 Consensus size: 35
8606279 TTTTGAGAAT
*
8606289 TTTAAAACAAATTTTTGTCTCGTTTGAGACAATTTC
1 TTTAAAACAAA-TTTTGTCTCGCTTGAGACAATTTC
* * *
8606325 TTTCAAAGCAAATTTTGTCTCGCTTGAAACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* * *
8606362 -TAAAAACAAATTTTGTCTCGTTTGAGACAAATTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
8606396 TCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 T-TTAAAACAAATTTTGTCTCGCTTGAGACA
8606427 TTTTTCCTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 3 0.04
35 24 0.29
36 46 0.55
37 11 0.13
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Found at i:8606518 original size:105 final size:105
Alignment explanation
Indices: 8606393--8606638 Score: 304
Period size: 105 Copynumber: 2.4 Consensus size: 105
8606383 TTGAGACAAA
* *
8606393 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTCG
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
8606458 ATTCAC-TTAAAACAAAATTAATCTCACCTTAGATTGTTGT
66 ATTCACATT-AAACAAAATTAATCTCACCTTAGATTGTTGT
* * * * *
8606498 TTCTTTTAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTG
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
* * * *
8606563 TTTCACATTAAACAAAGTTGATCTCA-CTTGAGATCG-T-T
66 ATTCACATTAAACAAAATTAATCTCACCTT-AGATTGTTGT
* * * *
8606601 TCCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTC
8606639 TCTAAAAACA
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
102 28 0.23
103 4 0.03
104 4 0.03
105 83 0.69
106 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (105 bp):
TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
ATTCACATTAAACAAAATTAATCTCACCTTAGATTGTTGT
Found at i:8606646 original size:36 final size:34
Alignment explanation
Indices: 8606606--8606703 Score: 99
Period size: 36 Copynumber: 2.8 Consensus size: 34
8606596 TCGTTTCCTC
*
8606606 AAAAACAAACTTTGTCTCGCTTGAGACAATTTCTCT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATATCT-T
** *
8606642 AAAAACAAATTTTGTCTCATTTGAGACTATATCTT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATATCTT
* *
8606677 -AAAGCAAATTTCGTCTAGCTTGAGACA
1 AAAAACAAATTT-GTCTCGCTTGAGACA
8606704 TCATTTTCTC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
33 3 0.06
34 18 0.35
35 1 0.02
36 29 0.57
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAAACAAATTTGTCTCGCTTGAGACAATATCTT
Found at i:8606979 original size:27 final size:27
Alignment explanation
Indices: 8606941--8607207 Score: 396
Period size: 27 Copynumber: 9.8 Consensus size: 27
8606931 AAGACAATTT
8606941 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
8606968 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
8606995 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
* *
8607022 CTTTTGAAAAAATCTTTGAGTTTATTT
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
8607049 CTTTTG-AAAAATCTTTGAGTTTGTTT
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
8607075 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
**
8607102 CACTTG-AAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
8607128 CTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
*
8607157 CTTTTGAATAAAAATCTTTGAG-TTGTTT
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
8607185 CTTTTGAAAAAAAATCTTTGAGT
1 CTTTTG--AAAAAATCTTTGAGT
8607208 CTATTTATTT
Statistics
Matches: 223, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
26 49 0.22
27 108 0.48
28 24 0.11
29 42 0.19
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.48
Consensus pattern (27 bp):
CTTTTGAAAAAATCTTTGAGTTTGTTC
Found at i:8607005 original size:54 final size:54
Alignment explanation
Indices: 8606941--8607207 Score: 396
Period size: 53 Copynumber: 4.9 Consensus size: 54
8606931 AAGACAATTT
8606941 CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
* *
8606995 CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTATTT
1 CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
*
8607049 CTTTTG-AAAAATCTTTGAGTTTGTTTCTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
** *
8607102 CACTTG-AAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTG-A-AAAAATCTTTGAGTTTGTTC
*
8607157 CTTTTGAATAAAAATCTTTGAG-TTGTTTCTTTTGAAAAAAAATCTTTGAGT
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTCCTTTTG--AAAAAATCTTTGAGT
8607208 CTATTTATTT
Statistics
Matches: 194, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
53 73 0.38
54 59 0.30
55 23 0.12
57 24 0.12
58 15 0.08
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.48
Consensus pattern (54 bp):
CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAATCTTTGAGTTTGTTC
Found at i:8607298 original size:53 final size:53
Alignment explanation
Indices: 8607218--8607322 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
8607208 CTATTTATTT
*
8607218 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGTC
8607271 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGT
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGT
8607323 TGTTTCTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTAAAAAAATCTTTGAGTC
Found at i:8607351 original size:29 final size:30
Alignment explanation
Indices: 8607309--8607371 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
8607299 AATTTCGTAA
*
8607309 AAAAATCTTTGAGT-TGTTTCTTTTGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
8607338 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
8607368 AAAA
1 AAAA
8607372 TTTTATCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAAC
Found at i:8607440 original size:37 final size:36
Alignment explanation
Indices: 8607355--8607425 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 36
8607345 TTTGAGTCTG
* *
8607355 TTTCTTTGGAAACAAAATTTTATCTCTCTTAAGATAA
1 TTTCTTTTGAAACAAAACTTTATCTCTCTT-AGATAA
*
8607392 TTTCTTTTGAAACAAAACTTTGTCTCTCTT-GATA
1 TTTCTTTTGAAACAAAACTTTATCTCTCTTAGATA
8607426 CATATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 4 0.13
37 27 0.87
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.45
Consensus pattern (36 bp):
TTTCTTTTGAAACAAAACTTTATCTCTCTTAGATAA
Found at i:8607568 original size:100 final size:100
Alignment explanation
Indices: 8607338--8607569 Score: 251
Period size: 100 Copynumber: 2.3 Consensus size: 100
8607328 CTTTTGAAAC
*** **
8607338 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTATCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATAAAAAATCTCTTAAGATAATTTCTTTTGAA
*
8607403 ACAAAACTTTGTCTCTCTTGATACATATTTTATTG
66 ACAAAACTTTGTCTCTCTTGAGACATATTTTATTG
* * * *
8607438 AAAAATCTTTGAGTCTGTTTCACTT-AAAACAAAATGAAAAAATCT-TTGAG-TATGTTTC-TTT
1 AAAAATCTTTGAGTCTGTTTC-TTTGGAAACAAAAT-AAAAAATCTCTTAAGATA-ATTTCTTTT
* * *
8607499 GATAACAAAATTTTGTCTCTTTTGAGA-A-AGTTTCTGTTG
63 GA-AACAAAACTTTGTCTCTCTTGAGACATA-TTT-TATTG
8607538 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAA
8607570 CATTCACCAT
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
98 1 0.01
99 13 0.12
100 90 0.82
101 6 0.05
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (100 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATAAAAAATCTCTTAAGATAATTTCTTTTGAA
ACAAAACTTTGTCTCTCTTGAGACATATTTTATTG
Found at i:8607691 original size:27 final size:29
Alignment explanation
Indices: 8607660--8607724 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 29
8607650 TCTTGAGACA
*
8607660 ATTTCTTTTGA-AAAA-ATCTTTGAGTCT
1 ATTTCTTTTAACAAAACATCTTTGAGTCT
* * *
8607687 GTTTCTCTTAACAAAATCATCTTTGAGTTT
1 ATTTCTTTTAACAAAA-CATCTTTGAGTCT
8607717 ATTTCTTT
1 ATTTCTTT
8607725 AAAAACAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
27 8 0.28
28 4 0.14
30 17 0.59
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (29 bp):
ATTTCTTTTAACAAAACATCTTTGAGTCT
Found at i:8607872 original size:120 final size:120
Alignment explanation
Indices: 8607704--8607927 Score: 260
Period size: 120 Copynumber: 1.9 Consensus size: 120
8607694 TTAACAAAAT
* * * * *
8607704 CATCTTTGAGTTTATTTCTTTAAAAACAAATGTTGTCTCTCTTGAGACAGTTTCTAATT-AAAAA
1 CATCTTCGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCT-ATTGAAAAA
*
8607768 CTAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTTACTTAAGATGTAATC
65 -AAATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
** *
8607824 CATCTTCGAGTCTATTTCTTTTGAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTTTTGAAAA
1 CATCTTCGAGTCTATTTCTTTAAAAAC-AAATGTTGTATCTCTT-AAGACAATTTCTATTGAAAA
* * *
8607887 AAAATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCT
64 AAAATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCT
8607928 CTCGAGACAA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
119 32 0.37
120 51 0.59
121 4 0.05
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (120 bp):
CATCTTCGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTATTGAAAAAA
AATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTTACTTAAGATGTAATC
Found at i:8608008 original size:39 final size:40
Alignment explanation
Indices: 8607932--8608010 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
8607922 TTGTCTCTCG
8607932 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
*
8607972 AGACAACTTCTTTTGAAAATA-CCACCTTTGATATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
8608011 CTATTAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
Found at i:8608287 original size:1 final size:1
Alignment explanation
Indices: 8608281--8608306 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8608271 ATGTCTTTTC
8608281 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
8608307 TTTGAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8608572 original size:66 final size:65
Alignment explanation
Indices: 8608451--8608589 Score: 163
Period size: 66 Copynumber: 2.1 Consensus size: 65
8608441 ACAAAACAAA
* * ** * *
8608451 CATCTTTGAGATCGTTTCCCTTGAAATGAATTTTGTCTCATTTGAGACAATTTCCCATGAAACGC
1 CATCTTTGAGAACGTTTCCCTTAAAACAAATTTTGTCTCACTTAAGACAATTTCCCATGAAACGC
* * * *
8608516 CGATCTTTGAGAACGTTTCCCTTAAAAACAAATTTTGTCTCGCTTAAGACAA-TTCCCTTTAAAT
1 C-ATCTTTGAGAACGTTTCCCTT-AAAACAAATTTTGTCTCACTTAAGACAATTTCCCATGAAAC
8608580 GC
64 GC
8608582 CATCTTTG
1 CATCTTTG
8608590 GGTTGTTTCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
65 8 0.13
66 32 0.52
67 22 0.35
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (65 bp):
CATCTTTGAGAACGTTTCCCTTAAAACAAATTTTGTCTCACTTAAGACAATTTCCCATGAAACGC
Found at i:8608921 original size:40 final size:40
Alignment explanation
Indices: 8608866--8608977 Score: 199
Period size: 40 Copynumber: 2.8 Consensus size: 40
8608856 CTTTAGATGG
8608866 CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCGGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GA
8608906 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
*
8608946 CCAGATCTCTTCATCACGTATGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA
8608978 CCCTAGATAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 65 0.93
41 5 0.07
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGA
Found at i:8609314 original size:3 final size:3
Alignment explanation
Indices: 8609303--8609354 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
8609293 TTTTTTTCCG
**
8609303 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8609349 ATA TTA
1 TTA TTA
8609355 CATTTTACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8609879 original size:13 final size:13
Alignment explanation
Indices: 8609861--8609904 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
8609851 GGGGGGTTCA
8609861 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
8609874 AAAAAAAGAAAGAG
1 AAAAAAA-AAAAAG
* *
8609888 AAAACATAAAAAG
1 AAAAAAAAAAAAG
8609901 AAAA
1 AAAA
8609905 CAGAAGATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:8613092 original size:20 final size:20
Alignment explanation
Indices: 8613069--8613234 Score: 72
Period size: 20 Copynumber: 8.2 Consensus size: 20
8613059 CACAGTTTCC
*
8613069 GAATTCGCAACTCGAATTTG
1 GAATTCGCAACTCGAATTTA
* * *
8613089 GAATTCGTAACACAGAA-GTA
1 GAATTCGCAACTC-GAATTTA
8613109 GAATTCGCAACTCGAATTTA
1 GAATTCGCAACTCGAATTTA
* *
8613129 -ACATTTTCGCAACACGAATTTCT
1 GA-A--TTCGCAACTCGAATTT-A
* * *
8613152 G-TTTCGCAACTTGATTTTTA
1 GAATTCGCAACTCGA-ATTTA
* * * *
8613172 -AATTTGCAACACGAGTTTC
1 GAATTCGCAACTCGAATTTA
** * *
8613191 GTTTTCGCAACTCGATTTTC
1 GAATTCGCAACTCGAATTTA
* *
8613211 TAATTCGCAACGCGAATTTA
1 GAATTCGCAACTCGAATTTA
8613231 -AATT
1 GAATT
8613235 TCGCGACTCA
Statistics
Matches: 105, Mismatches: 31, Indels: 21
0.67 0.20 0.13
Matches are distributed among these distances:
19 11 0.10
20 73 0.70
21 6 0.06
22 15 0.14
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (20 bp):
GAATTCGCAACTCGAATTTA
Found at i:8613185 original size:40 final size:40
Alignment explanation
Indices: 8613134--8613229 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
8613124 ATTTAACATT
*
8613134 TTCGCAACACGAATTTC-TGTTTCGCAACTTGATTTT-TAAA
1 TTCGCAACACGAATTTCGT-TTTCGCAACTCGATTTTCT-AA
* *
8613174 TTTGCAACACGAGTTTCGTTTTCGCAACTCGATTTTCTAA
1 TTCGCAACACGAATTTCGTTTTCGCAACTCGATTTTCTAA
*
8613214 TTCGCAACGCGAATTT
1 TTCGCAACACGAATTT
8613230 AAATTTCGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (40 bp):
TTCGCAACACGAATTTCGTTTTCGCAACTCGATTTTCTAA
Found at i:8613237 original size:20 final size:20
Alignment explanation
Indices: 8613112--8613261 Score: 81
Period size: 20 Copynumber: 7.4 Consensus size: 20
8613102 AGAAGTAGAA
8613112 TTCGCAACTCGAATTTAACATT
1 TTCGCAACTCGAATTTAA-A-T
* ***
8613134 TTCGCAACACGAATTTCTGT
1 TTCGCAACTCGAATTTAAAT
* *
8613154 TTCGCAACTTGATTTTTAAAT
1 TTCGCAACTCGA-ATTTAAAT
* * ***
8613175 TT-GCAACACGAGTTTCGTT
1 TTCGCAACTCGAATTTAAAT
* *
8613194 TTCGCAACTCGATTTTCTAA-
1 TTCGCAACTCGAATTT-AAAT
*
8613214 TTCGCAACGCGAATTTAAAT
1 TTCGCAACTCGAATTTAAAT
* * *
8613234 TTCGCGACTC-AGCTTTTAAT
1 TTCGCAACTCGA-ATTTAAAT
8613254 TTCGCAAC
1 TTCGCAAC
8613262 ACATATATTT
Statistics
Matches: 94, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
19 9 0.10
20 64 0.68
21 6 0.06
22 15 0.16
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (20 bp):
TTCGCAACTCGAATTTAAAT
Found at i:8613237 original size:40 final size:40
Alignment explanation
Indices: 8613072--8613263 Score: 122
Period size: 40 Copynumber: 4.8 Consensus size: 40
8613062 AGTTTCCGAA
* ** * * **
8613072 TTCGCAACTCGAATTTGGAATTCGTAACACAGAAGTAGAA-
1 TTCGCAACTCGATTTTTAAATTCGCAACAC-GAATTTCAAT
* **
8613112 TTCGCAACTCGA-ATTTAACATTTTCGCAACACGAATTTCTGT
1 TTCGCAACTCGATTTTTAA-A--TTCGCAACACGAATTTCAAT
* * * **
8613154 TTCGCAACTTGATTTTTAAATTTGCAACACGAGTTTCGTT
1 TTCGCAACTCGATTTTTAAATTCGCAACACGAATTTCAAT
* *
8613194 TTCGCAACTCGATTTTCT-AATTCGCAACGCGAATTTAAAT
1 TTCGCAACTCGATTTT-TAAATTCGCAACACGAATTTCAAT
* * *
8613234 TTCGCGACTC-AGCTTTTAATTTCGCAACAC
1 TTCGCAACTCGA-TTTTTAAATTCGCAACAC
8613264 ATATATTTTG
Statistics
Matches: 118, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
39 5 0.04
40 82 0.69
41 5 0.04
42 21 0.18
43 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (40 bp):
TTCGCAACTCGATTTTTAAATTCGCAACACGAATTTCAAT
Found at i:8613372 original size:22 final size:22
Alignment explanation
Indices: 8613347--8613401 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
8613337 TCACTTACTC
8613347 TCTCCGGCGACATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
*
8613369 TCTCCGGCGATATCCGTCCCCA
1 TCTCCGGCGACATCCGTCCCCA
8613391 TCTCCGGCGAC
1 TCTCCGGCGAC
8613402 CCCACTCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.13, C:0.47, G:0.20, T:0.20
Consensus pattern (22 bp):
TCTCCGGCGACATCCGTCCCCA
Found at i:8616534 original size:24 final size:24
Alignment explanation
Indices: 8616506--8616559 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8616496 CTGAAACATC
*
8616506 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAA
* * * *
8616530 ATCAAAGTCTGGGTATTTACCAAA
1 ATCAAAATCCGAGTATTGACCAAA
8616554 ATCAAA
1 ATCAAA
8616560 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAA
Found at i:8617379 original size:22 final size:22
Alignment explanation
Indices: 8617351--8617398 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
8617341 GAAAATATTA
*
8617351 GAGATAGGGAC-GAATGTCGTTG
1 GAGATAGGGACAG-ATGTCGTCG
8617373 GAGATAGGGACAGATGTCGTCG
1 GAGATAGGGACAGATGTCGTCG
8617395 GAGA
1 GAGA
8617399 GAGTGAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.29, C:0.10, G:0.42, T:0.19
Consensus pattern (22 bp):
GAGATAGGGACAGATGTCGTCG
Found at i:8617409 original size:22 final size:22
Alignment explanation
Indices: 8617351--8617410 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
8617341 GAAAATATTA
* *
8617351 GAGATAGGGAC-GAATGTCGTTG
1 GAGAGAGGGACAG-ATGTCGTCG
*
8617373 GAGATAGGGACAGATGTCGTCG
1 GAGAGAGGGACAGATGTCGTCG
* *
8617395 GAGAGAGTGAGAGATG
1 GAGAGAGGGACAGATG
8617411 GAGATGGACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.43, T:0.18
Consensus pattern (22 bp):
GAGAGAGGGACAGATGTCGTCG
Found at i:8617586 original size:40 final size:40
Alignment explanation
Indices: 8617542--8617617 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
8617532 TACTAATTAG
8617542 AAAATCGAGTTGCGAAA-ACGAAACTCGTGTTGCGAATTTA
1 AAAATCGAGTTGCGAAACA-GAAACTCGTGTTGCGAATTTA
* *
8617582 AAAATTGAGTTGCGAAACAGAAATTCGTGTTGCGAA
1 AAAATCGAGTTGCGAAACAGAAACTCGTGTTGCGAA
8617618 AATGTCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (40 bp):
AAAATCGAGTTGCGAAACAGAAACTCGTGTTGCGAATTTA
Found at i:8617675 original size:20 final size:20
Alignment explanation
Indices: 8617546--8617699 Score: 98
Period size: 20 Copynumber: 7.6 Consensus size: 20
8617536 AATTAGAAAA
* * *
8617546 TCGAGTTGCGAAAACGAAAC
1 TCGAGTTGCGAAATCCAAAT
* * **
8617566 TCGTGTTGCGAATTTAAAAAT
1 TCGAGTTGCGAA-ATCCAAAT
*
8617587 T-GAGTTGCGAAA-CAGAAAT
1 TCGAGTTGCGAAATC-CAAAT
* *
8617606 TCGTGTTGCGAAAATGTCAAAT
1 TCGAGTTGCG-AAAT-CCAAAT
* * * *
8617628 TCAAGTTGCG-AATTCTACT
1 TCGAGTTGCGAAATCCAAAT
*
8617647 TCTGTGTTGCGAAATCCAAAT
1 TC-GAGTTGCGAAATCCAAAT
*
8617668 TCGAGTTGCGAATTCCAAAT
1 TCGAGTTGCGAAATCCAAAT
8617688 TCGAGTTGCGAA
1 TCGAGTTGCGAA
8617700 TTCGGAAACT
Statistics
Matches: 102, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
19 11 0.11
20 64 0.63
21 15 0.15
22 12 0.12
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (20 bp):
TCGAGTTGCGAAATCCAAAT
Found at i:8617696 original size:40 final size:40
Alignment explanation
Indices: 8617602--8617699 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
8617592 TGCGAAACAG
*
8617602 AAATTCGTGTTGCGAAAATGTCAAATTCAAGTTGCGAATTC
1 AAATTCGTGTTGCG-AAATGCCAAATTCAAGTTGCGAATTC
* * *
8617643 TACTTCTGTGTTGCGAAAT-CCAAATTCGAGTTGCGAATTCC
1 AAATTC-GTGTTGCGAAATGCCAAATTCAAGTTGCGAATT-C
*
8617684 AAATTCGAGTTGCGAA
1 AAATTCGTGTTGCGAA
8617700 TTCGGAAACT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 27 0.56
41 13 0.27
42 8 0.17
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (40 bp):
AAATTCGTGTTGCGAAATGCCAAATTCAAGTTGCGAATTC
Found at i:8617700 original size:20 final size:20
Alignment explanation
Indices: 8617623--8617702 Score: 99
Period size: 20 Copynumber: 4.0 Consensus size: 20
8617613 GCGAAAATGT
*
8617623 CAAATTCAAGTTGCGAATT-
1 CAAATTCGAGTTGCGAATTC
* * * *
8617642 CTACTTCTGTGTTGCGAAATC
1 CAAATTC-GAGTTGCGAATTC
8617663 CAAATTCGAGTTGCGAATTC
1 CAAATTCGAGTTGCGAATTC
8617683 CAAATTCGAGTTGCGAATTC
1 CAAATTCGAGTTGCGAATTC
8617703 GGAAACTGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
19 5 0.10
20 40 0.80
21 5 0.10
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (20 bp):
CAAATTCGAGTTGCGAATTC
Found at i:8617721 original size:60 final size:59
Alignment explanation
Indices: 8617648--8617762 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 59
8617638 AATTCTACTT
8617648 CTGTGTTGCGAAATCCAAATTCG-AGTTGCGAATTCCAAATTCGAGTTGCGAATTCGGAAA
1 CTGTGTTGCGAAATCCAAATTCGTA-TTGCGAATTCCAAATT-GAGTTGCGAATTCGGAAA
* * * *** *
8617708 CTGTTTTGTGAAATTCGCTTTCGTATTGCGAATTCGAAATTGAGTTGCGAATTCG
1 CTGTGTTGCGAAATCCAAATTCGTATTGCGAATTCCAAATTGAGTTGCGAATTCG
8617763 TTGGTTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 14 0.30
60 32 0.68
61 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (59 bp):
CTGTGTTGCGAAATCCAAATTCGTATTGCGAATTCCAAATTGAGTTGCGAATTCGGAAA
Found at i:8618993 original size:17 final size:18
Alignment explanation
Indices: 8618957--8618997 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8618947 ATATTATGTA
*
8618957 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
8618975 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
8618992 TTTACT
1 TTTACT
8618998 AATACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:8624458 original size:12 final size:13
Alignment explanation
Indices: 8624441--8624469 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8624431 TATAATAAAA
8624441 AAAATTTATAAC-
1 AAAATTTATAACG
8624453 AAAATTTATAACG
1 AAAATTTATAACG
8624466 AAAA
1 AAAA
8624470 ATCGCACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAATTTATAACG
Found at i:8630137 original size:29 final size:29
Alignment explanation
Indices: 8630105--8630160 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
8630095 GAATTATACT
* *
8630105 AAATTCTTAATTTCATACATAATATTTAA
1 AAATTCTCAATATCATACATAATATTTAA
8630134 AAATTCTCAATATCATACATAATATTT
1 AAATTCTCAATATCATACATAATATTT
8630161 TTTCCGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATTCTCAATATCATACATAATATTTAA
Found at i:8633056 original size:31 final size:30
Alignment explanation
Indices: 8633018--8633086 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8633008 CTTTTAAAAC
* *
8633018 TTGCAATACAATCCCCCAACATTTAG-TTCAT
1 TTGCAATA-AAGCCCCCAACATTTAGCCT-AT
* *
8633049 TTGCAATATAGCCCCTAACATTTAGCCTAT
1 TTGCAATAAAGCCCCCAACATTTAGCCTAT
8633079 TTGCAATA
1 TTGCAATA
8633087 TGGTCCCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (30 bp):
TTGCAATAAAGCCCCCAACATTTAGCCTAT
Found at i:8633071 original size:30 final size:30
Alignment explanation
Indices: 8633030--8633103 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
8633020 GCAATACAAT
*
8633030 CCCCCAACATTTAG-TTCATTTGCAATATAG
1 CCCCCAACATTTAGCCT-ATTTGCAATATAG
* *
8633060 CCCCTAACATTTAGCCTATTTGCAATATGG
1 CCCCCAACATTTAGCCTATTTGCAATATAG
*
8633090 TCCCCAACCATTTA
1 CCCCCAA-CATTTA
8633104 ACACCGTTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 30 0.81
31 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (30 bp):
CCCCCAACATTTAGCCTATTTGCAATATAG
Found at i:8635063 original size:31 final size:31
Alignment explanation
Indices: 8635020--8635085 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
8635010 AAATGGTCGA
*
8635020 GGACCATATTGCAAACAGACTAAATATTGGG
1 GGACCATATTGCAAACAGACTAAATATTAGG
* **
8635051 GGACTATATTGCAAATGGACTAAATATTAGG
1 GGACCATATTGCAAACAGACTAAATATTAGG
8635082 GGAC
1 GGAC
8635086 AATTTTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (31 bp):
GGACCATATTGCAAACAGACTAAATATTAGG
Found at i:8635727 original size:23 final size:23
Alignment explanation
Indices: 8635696--8635762 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 23
8635686 AATAAAAAAT
* *
8635696 TTTATTCTTGTAACACATTTTTC
1 TTTACTCTTGTGACACATTTTTC
*
8635719 TTTACTCTTGTGACAC-TTTTTG
1 TTTACTCTTGTGACACATTTTTC
* *
8635741 TATGCTCTTGTGACACATTTTT
1 TTTACTCTTGTGACACATTTTT
8635763 TATGGCTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
22 19 0.50
23 19 0.50
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.54
Consensus pattern (23 bp):
TTTACTCTTGTGACACATTTTTC
Found at i:8637053 original size:22 final size:23
Alignment explanation
Indices: 8637015--8637077 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
8637005 TAGAAATGCA
*
8637015 CCAAAGTG-CCACATAGAA-TGTC
1 CCAAAG-GACCACGTAGAATTGTC
* *
8637037 CCGAAGGACTACGTAGAATTGTC
1 CCAAAGGACCACGTAGAATTGTC
*
8637060 CCAAAGGACCGCGTAGAA
1 CCAAAGGACCACGTAGAA
8637078 CCCTTGACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.03
22 13 0.39
23 19 0.58
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (23 bp):
CCAAAGGACCACGTAGAATTGTC
Found at i:8639440 original size:17 final size:17
Alignment explanation
Indices: 8639397--8639448 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
8639387 AATACAGTAG
*
8639397 AAACTCTTTAAATTAAT
1 AAACTCTATAAATTAAT
*
8639414 --ACTCGATAAATTAAT
1 AAACTCTATAAATTAAT
* *
8639429 AAACTCTCTAAAATAAT
1 AAACTCTATAAATTAAT
8639446 AAA
1 AAA
8639449 TTTGTCTGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
AAACTCTATAAATTAAT
Found at i:8643426 original size:19 final size:18
Alignment explanation
Indices: 8643371--8643427 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
8643361 ATATTTTTTT
8643371 AATTTTTTTTAAAAATAAA
1 AATTTTTTTTAAAAA-AAA
* * *
8643390 AATATTCTTTAAAGAAAAG
1 AATTTTTTTTAAA-AAAAA
8643409 AATTTTTTTTATAAAAAAA
1 AATTTTTTTTA-AAAAAAA
8643428 TCGTTCTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
AATTTTTTTTAAAAAAAA
Found at i:8644570 original size:2 final size:2
Alignment explanation
Indices: 8644565--8644597 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8644555 GTGTTTTTTA
8644565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8644598 ATTTTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8645249 original size:16 final size:18
Alignment explanation
Indices: 8645224--8645265 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
8645214 TGGAATGCAC
*
8645224 TATT-AATTTTATAT-GT
1 TATTAAATTTTAAATCGT
8645240 TA-TAAATTTTAAATCGT
1 TATTAAATTTTAAATCGT
8645257 TATTAAATT
1 TATTAAATT
8645266 ATATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 11 0.50
17 4 0.18
18 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTAAATTTTAAATCGT
Found at i:8645756 original size:31 final size:33
Alignment explanation
Indices: 8645719--8645789 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
8645709 TTTGAATATA
8645719 AATTTTAAAATATAT-T-TATA-ATTTCAAAAAT
1 AATTTTAAAATATATATATATATATTT-AAAAAT
8645750 AATTTTAAAATATATATATATATATTTAAAAAT
1 AATTTTAAAATATATATATATATATTTAAAAAT
*
8645783 GATTTTA
1 AATTTTA
8645790 TTTTTTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 15 0.42
32 1 0.03
33 16 0.44
34 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
AATTTTAAAATATATATATATATATTTAAAAAT
Found at i:8646663 original size:50 final size:51
Alignment explanation
Indices: 8646573--8646675 Score: 127
Period size: 50 Copynumber: 2.0 Consensus size: 51
8646563 AATTTTAATA
** *
8646573 AAAAAATTATATTTTATTTGAACTCGTCACCCCAGAGTGACAAGTTCGAAT
1 AAAAAATTATATTTTATTAAAACTCGTCACCCCAGAGTGACAAGTTCCAAT
* * * * *
8646624 AAAAAA-TATTTTTTATTAAAACTCGTCACCTCGGTGTGACGAGTTCCAAT
1 AAAAAATTATATTTTATTAAAACTCGTCACCCCAGAGTGACAAGTTCCAAT
8646674 AA
1 AA
8646676 CACTGTAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 38 0.86
51 6 0.14
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (51 bp):
AAAAAATTATATTTTATTAAAACTCGTCACCCCAGAGTGACAAGTTCCAAT
Found at i:8653384 original size:2 final size:2
Alignment explanation
Indices: 8653377--8653403 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8653367 TTAAAAACTT
8653377 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8653404 GTTTTTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8659166 original size:2 final size:2
Alignment explanation
Indices: 8659161--8659193 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8659151 CTTAAAAAAC
8659161 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8659194 CCCCCATCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8659394 original size:24 final size:24
Alignment explanation
Indices: 8659358--8659447 Score: 74
Period size: 24 Copynumber: 3.8 Consensus size: 24
8659348 TGGAGATATC
* * *
8659358 AGAAATGAAAACAGAATTCAGATC
1 AGAAATCAGAACAGAATTCAGATA
* * * *
8659382 AGATATCATAACAGAATCCATATA
1 AGAAATCAGAACAGAATTCAGATA
* *
8659406 AGAAATCAGAACAAAATTCAGGTA
1 AGAAATCAGAACAGAATTCAGATA
*
8659430 ATG-TATCAGAACAGAATT
1 A-GAAATCAGAACAGAATT
8659448 TAAGTCGGAA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 50 0.98
25 1 0.02
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.21
Consensus pattern (24 bp):
AGAAATCAGAACAGAATTCAGATA
Found at i:8667096 original size:20 final size:20
Alignment explanation
Indices: 8667067--8667104 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8667057 CCCCTTCAAA
*
8667067 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
8667087 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
8667105 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:8670953 original size:21 final size:21
Alignment explanation
Indices: 8670919--8670959 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8670909 GAGTTTGTTT
*
8670919 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8670940 TCATTTTT-ATATTTTAAAAC
1 TCATTTTTCA-ATTTTAAAAC
8670960 CAATTTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.51
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:8674031 original size:24 final size:24
Alignment explanation
Indices: 8673992--8674063 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
8673982 AAATGGAGAT
* *
8673992 ATCAGAAATCAAAACAAAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
8674016 ATCAGATATCGGAACAGAA-TCTAA
1 ATCAGAAATCAGAACAGAATTC-AG
8674040 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
8674064 GTAATGTATC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.05
24 34 0.89
25 2 0.05
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:8674048 original size:48 final size:48
Alignment explanation
Indices: 8673992--8674098 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 48
8673982 AAATGGAGAT
* *
8673992 ATCAGAAATCAAAACAAAATTCAGATCA-GATATCGGAACAGAATCTAA
1 ATCAGAAATCAAAACAAAATTCAGATAATG-TATCAGAACAGAATCTAA
* * * *
8674040 ATCAGAAATCAGAACAGAATTCAGGTAATGTATCAGAACAGAATTTAA
1 ATCAGAAATCAAAACAAAATTCAGATAATGTATCAGAACAGAATCTAA
* *
8674088 GTCAAAAATCA
1 ATCAGAAATCA
8674099 GATAAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
48 49 0.98
49 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGATAATGTATCAGAACAGAATCTAA
Found at i:8674098 original size:24 final size:24
Alignment explanation
Indices: 8674027--8674100 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
8674017 TCAGATATCG
* * *
8674027 GAACAGAATCTAAATCAGAAATCA
1 GAACAGAATTTAAGTCAAAAATCA
* * **
8674051 GAACAGAATTCAGGT-AATGTATCA
1 GAACAGAATTTAAGTCAA-AAATCA
8674075 GAACAGAATTTAAGTCAAAAATCA
1 GAACAGAATTTAAGTCAAAAATCA
8674099 GA
1 GA
8674101 TAAAATATTT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
23 1 0.03
24 34 0.92
25 2 0.05
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (24 bp):
GAACAGAATTTAAGTCAAAAATCA
Found at i:8677114 original size:16 final size:16
Alignment explanation
Indices: 8677084--8677114 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8677074 TAATATTGAA
*
8677084 ACTTGAACTCAAAAAG
1 ACTTGAACTAAAAAAG
8677100 ACTTGAACTAAAAAA
1 ACTTGAACTAAAAAA
8677115 AATTTAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTAAAAAAG
Found at i:8679463 original size:2 final size:2
Alignment explanation
Indices: 8679456--8679499 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
8679446 TAAAATTATG
8679456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8679498 AT
1 AT
8679500 CATAATTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8691156 original size:24 final size:23
Alignment explanation
Indices: 8691065--8691146 Score: 164
Period size: 23 Copynumber: 3.6 Consensus size: 23
8691055 GGATTCACCT
8691065 GTAATAAAAATTGCCGATATGAG
1 GTAATAAAAATTGCCGATATGAG
8691088 GTAATAAAAATTGCCGATATGAG
1 GTAATAAAAATTGCCGATATGAG
8691111 GTAATAAAAATTGCCGATATGAG
1 GTAATAAAAATTGCCGATATGAG
8691134 GTAATAAAAATTG
1 GTAATAAAAATTG
8691147 TGTTAAATGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (23 bp):
GTAATAAAAATTGCCGATATGAG
Found at i:8693356 original size:29 final size:29
Alignment explanation
Indices: 8693308--8693377 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
8693298 AATAACTATT
* * *
8693308 TAAAGTTATATTTTTGGTCAACATATGTACC
1 TAAAG-TAT-TTTTTGGTCAAAATAGGGACC
8693339 TAAAGTATTTTTTGGTCAAAATAGGGACC
1 TAAAGTATTTTTTGGTCAAAATAGGGACC
8693368 TAAAGTATTT
1 TAAAGTATTT
8693378 AATTTTTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 28 0.78
30 3 0.08
31 5 0.14
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (29 bp):
TAAAGTATTTTTTGGTCAAAATAGGGACC
Found at i:8693493 original size:28 final size:27
Alignment explanation
Indices: 8693452--8693553 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 27
8693442 AAAAAGTTTG
*
8693452 AATAGTTTAGGTACCTATTTTGATATAA
1 AATACTTTAGGTACCTATTTTGA-ATAA
*
8693480 AATACTTTATGTACCTATTTTGAATAAAA
1 AATACTTTAGGTACCTATTTTGAAT--AA
** *
8693509 ATATAACTTTAGGTATTTATTTTGACCAAAA
1 A-AT-ACTTTAGGTACCTATTTTGA--ATAA
8693540 AATACTTTAGGTAC
1 AATACTTTAGGTAC
8693554 TCAAATAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 2 0.03
28 21 0.34
29 13 0.21
30 4 0.07
31 20 0.33
33 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (27 bp):
AATACTTTAGGTACCTATTTTGAATAA
Found at i:8694738 original size:17 final size:18
Alignment explanation
Indices: 8694695--8694739 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
8694685 TTTCTGAAAG
* *
8694695 AATTATAATCTGTGAAGA
1 AATTAGAATCTGTCAAGA
*
8694713 AATTAGAATCTGTCAGGA
1 AATTAGAATCTGTCAAGA
8694731 AA-TAGAATC
1 AATTAGAATC
8694740 AAATTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (18 bp):
AATTAGAATCTGTCAAGA
Found at i:8695589 original size:254 final size:252
Alignment explanation
Indices: 8695099--8695712 Score: 773
Period size: 254 Copynumber: 2.4 Consensus size: 252
8695089 TCCATCCGAG
*
8695099 ACCCGACCCGACCAAAATAAAGTTTTACCTGACCCGACCCGAATATATGAATTAGAAACCCGACC
1 ACCCGACCCGACCAAAATAAAGTTTCACC-GACCCGACCCGAATATATGAATTAGAAACCCGACC
* * *
8695164 CGACCCTAAATAATAAAAAAATTATTTTTATTCAATAAAAGCTGTGACTTAATTGGAAAAAAAAA
65 CGACCCGAAATAAT-AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATT-G-AAAAAAAA
* * *
8695229 ATTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTT
127 ATTATATATAAAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTT
8695294 GGGTCGGGTCAGGTCGGGTATTTTTCACACGAACCCGACCCG-AATATCACACTTAAAAAAA-
192 --GTCGGGTCAGGTCGGGTATTTTTCACACGAACCCGACCCGCAATATCACACTTAAAAAAAT
* * * * **
8695355 A-TCGACTCGTCCAAAATAAAGTTTCACCGAACAAACCCGAATATATGAATTAGAAACCCGACCC
1 ACCCGACCCGACCAAAATAAAGTTTCACCGACCCGACCCGAATATATGAATTAGAAACCCGACCC
*
8695419 GACCCGAAATAATAAAAAAGTTATTTTTATTCAATAAAAACAGTGACTTAATT-TAAAAAAAATT
66 GACCCGAAATAATAAAAAA-TTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAAATT
8695483 ATATATAAAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATA-TATTT-TC
130 ATATATAAAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTC
* *
8695546 GGGTCGGGTCGGGTATTTTTCACCCTAAACCTGAACTCGACCCGACCCAAATATCACACTTAAAA
195 GGGTCAGGTCGGGTATTTTTCA--C---A-C-GAACCCGACCCG---C-AATATCACACTTAAAA
8695611 AAATT
249 AAA-T
* * *
8695616 GACCCGACCCGACCAAAATAGAGTTTCACCCGACCCGACCCAAATATATGAATTAGAAA-TC-A-
1 -ACCCGACCCGACCAAAATAAAGTTTCA-CCGACCCGACCCGAATATATGAATTAGAAACCCGAC
* *
8695678 --AACCCGAAATAATAAAAAAATATTTTTATTCAATA
64 CCGACCCGAAATAATAAAAAATTATTTTTATTCAATA
8695713 TATAAATAAG
Statistics
Matches: 313, Mismatches: 27, Indels: 34
0.84 0.07 0.09
Matches are distributed among these distances:
247 23 0.07
249 1 0.00
250 4 0.01
251 64 0.20
252 1 0.00
253 7 0.02
254 87 0.28
255 23 0.07
256 1 0.00
258 15 0.05
259 37 0.12
262 2 0.01
263 22 0.07
264 26 0.08
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (252 bp):
ACCCGACCCGACCAAAATAAAGTTTCACCGACCCGACCCGAATATATGAATTAGAAACCCGACCC
GACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAAATTA
TATATAAAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTCG
GGTCAGGTCGGGTATTTTTCACACGAACCCGACCCGCAATATCACACTTAAAAAAAT
Found at i:8698965 original size:3 final size:3
Alignment explanation
Indices: 8698949--8699017 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
8698939 ATCCATTTTT
* *
8698949 TTA TTG TTA ATA TTA TTA TTA TT- TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
**
8698994 TTA TTA TTA AAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
8699018 CAAACAGGCC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8698967 original size:27 final size:27
Alignment explanation
Indices: 8698937--8698994 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
8698927 TACTAATTTT
*
8698937 TTATCCATTTTTTTATT-GTTAATATTA
1 TTAT-CATTTTATTATTAGTTAATATTA
* * *
8698964 TTATTATTTTATTATTATTTATTATTA
1 TTATCATTTTATTATTAGTTAATATTA
8698991 TTAT
1 TTAT
8698995 TATTATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATCATTTTATTATTAGTTAATATTA
Found at i:8698973 original size:24 final size:24
Alignment explanation
Indices: 8698946--8699016 Score: 94
Period size: 22 Copynumber: 3.1 Consensus size: 24
8698936 TTTATCCATT
*
8698946 TTTTTATTGTTAATATTATTATTA
1 TTTTTATTATTAATATTATTATTA
8698970 -TTTTATTATT-AT-TTATTATTA
1 TTTTTATTATTAATATTATTATTA
* *
8698991 TTATTATTATTAAAATTATTATTA
1 TTTTTATTATTAATATTATTATTA
8699015 TT
1 TT
8699017 ACAAACAGGC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.22
22 11 0.27
23 10 0.24
24 11 0.27
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (24 bp):
TTTTTATTATTAATATTATTATTA
Found at i:8700532 original size:16 final size:16
Alignment explanation
Indices: 8700511--8700541 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8700501 TTTTACTTTC
*
8700511 ATATATTTATGATTAT
1 ATATATTTATCATTAT
8700527 ATATATTTATCATTA
1 ATATATTTATCATTA
8700542 GTATTACTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
ATATATTTATCATTAT
Found at i:8703138 original size:16 final size:16
Alignment explanation
Indices: 8703114--8703144 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8703104 GAAACTTACA
8703114 TCATGCATTAAAACAT
1 TCATGCATTAAAACAT
*
8703130 TCATTCATTAAAACA
1 TCATGCATTAAAACA
8703145 AGGATTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (16 bp):
TCATGCATTAAAACAT
Found at i:8706497 original size:20 final size:20
Alignment explanation
Indices: 8706443--8706488 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
8706433 TATTATGCTT
* *
8706443 GAAAAAAAATAGAAAAAAGG
1 GAAAAAAAAGAAAAAAAAGG
8706463 GAAAAAAAAGAAAAAAAAGG
1 GAAAAAAAAGAAAAAAAAGG
8706483 GAAAAA
1 GAAAAA
8706489 GGAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
GAAAAAAAAGAAAAAAAAGG
Found at i:8712146 original size:113 final size:111
Alignment explanation
Indices: 8711846--8712531 Score: 544
Period size: 113 Copynumber: 6.0 Consensus size: 111
8711836 TAGCAAAGAT
* * * *
8711846 TCAAATCCATCAC-AATGGATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG
1 TCAAATTCATCACTGATGGATCAACATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
8711910 AAGGAAG-AGAAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGT
66 AAGGAAGAAGAAA-TTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * * *
8711956 TCAAATCCATAAC-AATGGATCAACATTTCTAGAAGA-TTTATAATGAGAAGAACTCATCTGAAG
1 TCAAATTCATCACTGATGGATCAACATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
8712019 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGC
66 AAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
** * *
8712065 TCAAATTCATCACTTGATGTTTCAGCATTGCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATTCATCAC-TGATGGATCAACATTTCCAG-TAGAGTTCATAATGAGAAGAACTCATCTGA
* * * **
8712130 AGAAGAAAGAAGAAATTTATAATGAGAAGAATTTGTTCAACCTTTTAA
64 AGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * *
8712178 TTAAATTCATCACTCGATGGATCAACCTTTCCA-TAGAAAGTTCATAATGAGAAGAACTCATCTT
1 TCAAATTCATCACT-GATGGATCAACATTTCCAGTAG--AGTTCATAATGAGAAGAACTCATCTG
* * *
8712242 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTG-
63 AAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * * *
8712290 -CATGACTCTATCACAGAAGGAGATATATCATCATCAACATTTCCAGAAGTGTTCATAATGAGAA
1 TCA-AATTC-ATCACTG-ATG-G----------ATCAACATTTCCAGTAGAGTTCATAATGAGAA
* * * * * *
8712354 GAACTCATCTGAAGAAAGAAGAAGGAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTAC
52 GAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * * * * * * *
8712414 AT-GACTTTATCACAGAAGGAGATATATCATCATCAATATTTCCGGAAGTGTTCATAATAAGAAG
1 -TCAAATTCATCACTG-ATG-G----ATCA--A-C---ATTTCCAGTAGAGTTCATAATGAGAAG
* *
8712478 AACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTT
53 AACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTT
8712532 GCCTTAATTC
Statistics
Matches: 479, Mismatches: 65, Indels: 52
0.80 0.11 0.09
Matches are distributed among these distances:
109 73 0.15
110 38 0.08
111 17 0.04
112 8 0.02
113 165 0.34
114 1 0.00
117 4 0.01
119 1 0.00
120 1 0.00
122 36 0.08
123 120 0.25
124 13 0.03
125 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (111 bp):
TCAAATTCATCACTGATGGATCAACATTTCCAGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Done.